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 Rv1215c/-:

update plot	correlation	link to info on gene
Rv1482c/-	(cc=0.6263)	info on Rv1482c/-
Rv0844c/narL	(cc=0.6025)	info on Rv0844c/narL
Rv1616/-	(cc=0.5809)	info on Rv1616/-
Rv3378c/-	(cc=0.5474)	info on Rv3378c/-
Rv1949c/-	(cc=0.5463)	info on Rv1949c/-
Rv2929/-	(cc=0.5324)	info on Rv2929/-
Rv1944c/-	(cc=0.525)	info on Rv1944c/-
Rv1871c/-	(cc=0.5209)	info on Rv1871c/-
Rv2529/-	(cc=0.5143)	info on Rv2529/-
Rv2161c/-	(cc=0.5035)	info on Rv2161c/-

Correlation of Rv1215c/- with Rv1944c/-

Normalized LFCs for Rv1215c/-:
(description and provenance of datasets)

	Rv1215c/-	Rv1944c/-
Fe_supp_jason_reseq	-0.272	-0.614
low_pH_jason_reseq	0.11	2.561
NO_jason_reseq	0.339	-0.788
B6_jason_reseq	-0.613	-0.807
MHCII_jason_reseq	-1.388	-1.64
Isoniazid02	0.755	3.462
Rifampicin4	0.441	0.173
Ethambutol3	2.03	3.199
Meropenem3	0.919	0.097
Vancomycin16	0.276	0.17
Rv2680_day32	0.171	-0.039
H37Rv_KO_MarP	0.334	0.49
hypoxia_3wks	0.622	-0.522
hypoxia_6wks	0.0	0.0
glycerol	-0.127	-0.614
cholesterol	0.069	0.946
AJ	0.536	-0.97
Bibs02	-0.399	0.413
Bibs02c	-0.488	-0.67
BL6	0.418	0.477
BL6a	0.141	0.044
BXD01	0.339	0.734
BXD010	0.527	0.605
BXD011	1.165	0.323
BXD03	0.172	0.133
BXD04	0.158	-0.627
BXD05	0.27	1.216
BXD06	0.515	0.314
BXD07	0.25	0.549
BXD08	0.743	0.925
BXD09	0.53	0.196
CAST	0.509	0.367
CCcont	0.054	0.694
DS01	0.058	0.282
DS02	0.323	0.532
DS04	0.093	0.252
DS0c	0.079	1.279
GP01	0.529	0.843
GP02	1.583	2.041
GP0c	0.077	1.277
NOD	-0.172	0.944
NZO	0.98	-0.517
PWK	0.117	1.269
H37Rv_KO_CtpC	0.721	1.205
H37Rv_KO_CtpD	0.5	0.344
H37Rv_KO_Rv1272	0.837	1.093
H37Rv_KO_SugABC	-0.024	0.768
H37Rv_KO_MbtN	0.297	0.08
Trans05	0.601	-0.126
macrophage_unactivated	-0.186	0.9
IL1	-0.264	-0.89
Rapamycin	-0.181	-0.387
Tcell	0.14	1.388
GMCSF	-0.037	-0.42
IFNab	0.088	0.514
IFNg	-0.238	-0.249
IFNg_GMCSF1	-0.632	0.273
Rv1432_day32	1.285	1.073
Rv1565c_day32	0.092	0.444
secA2_input	-0.604	0.402
delta_Rv3594	-0.194	-0.26
delta_Rv3717	-0.932	0.191
delta_Rv3811	-0.598	-0.327
delta_Rv0954	-0.872	0.213
PonA1	-0.016	0.454
EccD1_KO	0.457	0.342
EspI_KO	0.311	0.328
PE35_KO	0.405	0.732
PPE68_KO	0.253	-0.038
glycerol2	-0.031	0.548
lignocerate	-0.054	0.258
oleate	0.593	0.525
phosphatidylcholine	0.539	0.978
acetate	-0.409	-0.279
glucAc	-0.644	-0.194
Rv0950ko	-0.347	-1.933
Rv1096ko	0.042	-0.799
Rv3684ko	-0.331	-2.512
delta_otsA_trehalose	-0.673	-1.08