TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv0010c/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv3482c/-	(cc=0.6791)	info on Rv3482c/-
Rv1323/fadA4	(cc=0.6436)	info on Rv1323/fadA4
Rv3737/-	(cc=0.6117)	info on Rv3737/-
Rv3480c/-	(cc=0.5901)	info on Rv3480c/-
Rv0965c/-	(cc=0.5745)	info on Rv0965c/-
Rv0470A/-	(cc=0.573)	info on Rv0470A/-
Rv1731/gabD2	(cc=0.5711)	info on Rv1731/gabD2
Rv0758/phoR	(cc=0.555)	info on Rv0758/phoR
Rv1192/-	(cc=0.5455)	info on Rv1192/-
Rv3037c/-	(cc=0.5419)	info on Rv3037c/-

Correlation of Rv0010c/- with Rv3482c/-

Normalized LFCs for Rv0010c/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv0010c/-	Rv3482c/-
Fe_supp_jason_reseq	1.301	0.543
low_pH_jason_reseq	-0.517	-1.541
NO_jason_reseq	-0.289	-0.218
B6_jason_reseq	0.181	0.878
MHCII_jason_reseq	1.209	1.276
Isoniazid02	0.604	0.618
Rifampicin4	0.62	0.079
Ethambutol3	0.82	1.654
Meropenem3	0.0	0.551
Vancomycin16	0.769	0.56
Rv2680_day32	-0.234	-0.738
H37Rv_KO_MarP	0.892	0.226
hypoxia_3wks	-0.933	-0.323
hypoxia_6wks	-0.597	0.106
glycerol	-0.148	0.177
cholesterol	-0.168	-0.377
AJ	-2.141	-0.928
Bibs02	0.374	0.008
Bibs02c	-0.227	0.291
BL6	-1.154	-0.82
BL6a	-1.385	-0.484
BXD01	-1.521	-0.936
BXD010	-0.176	-1.38
BXD011	-0.515	-1.176
BXD03	-2.126	-0.528
BXD04	-0.703	-0.672
BXD05	-1.572	-0.741
BXD06	-1.038	-1.019
BXD07	-1.215	-0.989
BXD08	-2.052	-1.268
BXD09	-0.738	-0.954
CAST	-1.361	-1.069
CCcont	-1.062	-0.282
DS01	-0.125	0.118
DS02	0.49	-0.013
DS04	-0.297	0.195
DS0c	-0.38	0.437
GP01	-1.322	-1.843
GP02	-2.129	-1.339
GP0c	-1.771	-1.004
NOD	-0.516	0.133
NZO	-1.248	-1.063
PWK	-1.937	-0.561
H37Rv_KO_CtpC	-0.235	-1.153
H37Rv_KO_CtpD	0.176	-0.654
H37Rv_KO_Rv1272	-1.392	-1.053
H37Rv_KO_SugABC	-0.586	-0.183
H37Rv_KO_MbtN	-0.774	-0.656
Trans05	-1.91	-0.866
macrophage_unactivated	-0.259	-0.357
IL1	-0.196	-0.3
Rapamycin	-0.359	0.261
Tcell	-0.919	-0.052
GMCSF	-1.125	0.209
IFNab	-0.68	-0.342
IFNg	-0.454	-0.013
IFNg_GMCSF1	-0.534	-0.016
Rv1432_day32	-0.626	-0.18
Rv1565c_day32	-0.855	-0.313
secA2_input	0.338	0.304
delta_Rv3594	-0.694	0.381
delta_Rv3717	-0.493	0.235
delta_Rv3811	0.486	0.128
delta_Rv0954	1.372	-0.08
PonA1	0.604	0.578
EccD1_KO	-0.786	-0.171
EspI_KO	-1.084	-0.148
PE35_KO	-0.697	-0.28
PPE68_KO	-0.352	0.08
glycerol2	0.521	0.846
lignocerate	0.075	1.085
oleate	0.2	0.096
phosphatidylcholine	0.675	1.088
acetate	-0.465	0.316
glucAc	-0.616	0.38
Rv0950ko	0.787	0.458
Rv1096ko	0.721	0.157
Rv3684ko	0.406	-0.491
delta_otsA_trehalose	-1.544	-1.133