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 Rv0477/-:

update plot	correlation	link to info on gene
Rv0144/-	(cc=0.5603)	info on Rv0144/-
Rv3218/-	(cc=0.518)	info on Rv3218/-
Rv2695/-	(cc=0.517)	info on Rv2695/-
Rv2263/-	(cc=0.4942)	info on Rv2263/-
Rv0194/-	(cc=0.4859)	info on Rv0194/-
Rv3840/-	(cc=0.4834)	info on Rv3840/-
Rv0122/-	(cc=0.4829)	info on Rv0122/-
Rv1506c/-	(cc=0.4686)	info on Rv1506c/-
Rv1513/-	(cc=0.4679)	info on Rv1513/-
Rv0217c/lipW	(cc=0.4668)	info on Rv0217c/lipW

Correlation of Rv0477/- with Rv0217c/lipW

Normalized LFCs for Rv0477/-:
(description and provenance of datasets)

	Rv0477/-	Rv0217c/lipW
Fe_supp_jason_reseq	0.098	-1.163
low_pH_jason_reseq	-1.051	-1.205
NO_jason_reseq	-0.512	-0.711
B6_jason_reseq	0.415	-0.274
MHCII_jason_reseq	0.42	-0.171
Isoniazid02	-0.506	-1.855
Rifampicin4	-0.073	0.319
Ethambutol3	-0.427	-1.417
Meropenem3	-0.14	-1.083
Vancomycin16	-0.554	-0.684
Rv2680_day32	-0.178	0.092
H37Rv_KO_MarP	0.302	0.368
hypoxia_3wks	0.267	0.0
hypoxia_6wks	-0.125	-0.952
glycerol	-0.471	0.102
cholesterol	0.363	0.212
AJ	-0.195	0.165
Bibs02	-0.162	1.186
Bibs02c	0.841	0.086
BL6	-0.034	-0.259
BL6a	0.647	0.478
BXD01	0.627	0.237
BXD010	0.095	-0.421
BXD011	0.711	0.975
BXD03	-0.379	0.258
BXD04	0.398	-0.461
BXD05	0.071	0.932
BXD06	0.456	0.195
BXD07	0.236	-0.202
BXD08	0.474	0.17
BXD09	0.305	-0.03
CAST	0.035	-0.39
CCcont	-0.677	-0.199
DS01	0.236	0.849
DS02	0.383	0.132
DS04	0.856	0.638
DS0c	0.426	-0.165
GP01	1.27	0.418
GP02	1.634	-0.205
GP0c	0.372	0.672
NOD	-0.802	-0.145
NZO	0.993	0.941
PWK	0.577	0.323
H37Rv_KO_CtpC	0.751	-0.421
H37Rv_KO_CtpD	0.718	0.436
H37Rv_KO_Rv1272	-0.634	-0.777
H37Rv_KO_SugABC	0.701	0.206
H37Rv_KO_MbtN	1.493	0.864
Trans05	0.698	0.41
macrophage_unactivated	-0.347	-0.319
IL1	-0.193	0.0
Rapamycin	-0.479	0.0
Tcell	-0.345	-0.137
GMCSF	0.33	0.071
IFNab	0.278	-0.085
IFNg	0.102	-0.601
IFNg_GMCSF1	0.236	0.798
Rv1432_day32	0.275	-0.222
Rv1565c_day32	-0.742	-0.041
secA2_input	0.358	0.121
delta_Rv3594	-0.107	0.419
delta_Rv3717	-0.133	0.127
delta_Rv3811	-0.671	-0.269
delta_Rv0954	-0.721	0.0
PonA1	-1.163	0.03
EccD1_KO	0.082	-0.533
EspI_KO	0.274	-0.16
PE35_KO	-0.866	-0.543
PPE68_KO	-0.49	-0.442
glycerol2	-0.017	0.135
lignocerate	-0.809	-0.465
oleate	0.768	0.818
phosphatidylcholine	-0.51	-0.108
acetate	-1.049	-0.555
glucAc	-2.238	-0.774
Rv0950ko	1.155	-0.256
Rv1096ko	0.166	0.688
Rv3684ko	0.868	-0.138
delta_otsA_trehalose	0.487	1.574