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 Rv1194c/-:

update plot	correlation	link to info on gene
Rv1195/PE13	(cc=0.7845)	info on Rv1195/PE13
Rv1196/PPE18	(cc=0.6576)	info on Rv1196/PPE18
Rv3417c/groEL1	(cc=0.5972)	info on Rv3417c/groEL1
Rv2814c/-	(cc=0.4811)	info on Rv2814c/-
Rv2167c/-	(cc=0.479)	info on Rv2167c/-
Rv1364c/-	(cc=0.4774)	info on Rv1364c/-
Rv2431c/PE25	(cc=0.4729)	info on Rv2431c/PE25
Rv1872c/lldD2	(cc=0.4721)	info on Rv1872c/lldD2
Rv1369c/-	(cc=0.4706)	info on Rv1369c/-
Rv2479c/-	(cc=0.4703)	info on Rv2479c/-

Correlation of Rv1194c/- with Rv2431c/PE25

Normalized LFCs for Rv1194c/-:
(description and provenance of datasets)

	Rv1194c/-	Rv2431c/PE25
Fe_supp_jason_reseq	-0.549	0.619
low_pH_jason_reseq	0.231	0.522
NO_jason_reseq	-1.759	-0.914
B6_jason_reseq	-0.604	-0.36
MHCII_jason_reseq	0.829	-0.217
Isoniazid02	0.26	-0.931
Rifampicin4	0.558	-1.6
Ethambutol3	-0.339	-1.563
Meropenem3	-0.503	-1.653
Vancomycin16	0.244	-0.921
Rv2680_day32	-0.333	-0.087
H37Rv_KO_MarP	-0.387	-0.447
hypoxia_3wks	0.243	0.582
hypoxia_6wks	0.065	0.0
glycerol	1.906	3.461
cholesterol	1.25	6.0
AJ	1.062	1.303
Bibs02	0.775	1.457
Bibs02c	0.517	1.199
BL6	0.99	1.457
BL6a	0.595	2.072
BXD01	-0.169	0.827
BXD010	-0.117	0.551
BXD011	0.416	2.085
BXD03	0.804	1.534
BXD04	0.796	1.689
BXD05	0.69	2.296
BXD06	0.33	1.937
BXD07	0.159	2.139
BXD08	0.023	1.605
BXD09	0.943	2.05
CAST	-0.082	-0.192
CCcont	0.888	1.232
DS01	1.983	3.744
DS02	0.844	3.294
DS04	1.456	3.536
DS0c	1.609	2.665
GP01	0.918	0.531
GP02	0.261	0.806
GP0c	0.321	1.557
NOD	0.428	1.523
NZO	1.043	0.962
PWK	1.067	2.947
H37Rv_KO_CtpC	-1.294	1.81
H37Rv_KO_CtpD	0.278	1.079
H37Rv_KO_Rv1272	1.561	2.011
H37Rv_KO_SugABC	1.002	1.484
H37Rv_KO_MbtN	0.135	0.09
Trans05	0.628	2.411
macrophage_unactivated	0.347	0.211
IL1	-1.447	0.561
Rapamycin	-0.043	0.233
Tcell	-2.294	0.72
GMCSF	-0.396	-0.304
IFNab	1.608	0.668
IFNg	-0.711	0.786
IFNg_GMCSF1	-0.782	0.852
Rv1432_day32	-0.24	0.439
Rv1565c_day32	0.438	5.482
secA2_input	0.28	-1.575
delta_Rv3594	0.254	0.425
delta_Rv3717	-0.508	0.174
delta_Rv3811	0.07	0.013
delta_Rv0954	-0.578	1.122
PonA1	0.09	0.196
EccD1_KO	0.408	-0.72
EspI_KO	1.184	-0.148
PE35_KO	0.785	0.639
PPE68_KO	0.118	0.64
glycerol2	0.535	-0.013
lignocerate	-0.356	-0.468
oleate	-1.474	0.801
phosphatidylcholine	0.31	0.162
acetate	-0.712	-0.753
glucAc	-0.865	-0.664
Rv0950ko	0.0	0.084
Rv1096ko	0.296	-1.197
Rv3684ko	-0.144	-0.177
delta_otsA_trehalose	0.759	0.513