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 Rv1904/-:

update plot	correlation	link to info on gene
Rv3767c/-	(cc=0.4995)	info on Rv3767c/-
Rv2268c/cyp128	(cc=0.4679)	info on Rv2268c/cyp128
Rv0338c/-	(cc=0.4656)	info on Rv0338c/-
Rv2443/dctA	(cc=0.4579)	info on Rv2443/dctA
Rv1372/-	(cc=0.4402)	info on Rv1372/-
Rv1770/-	(cc=0.4373)	info on Rv1770/-
Rv0320/-	(cc=0.436)	info on Rv0320/-
Rv3839/-	(cc=0.431)	info on Rv3839/-
Rv2090/-	(cc=0.4169)	info on Rv2090/-
Rv2431c/PE25	(cc=0.4042)	info on Rv2431c/PE25

Correlation of Rv1904/- with Rv2443/dctA

Normalized LFCs for Rv1904/-:
(description and provenance of datasets)

	Rv1904/-	Rv2443/dctA
Fe_supp_jason_reseq	-0.229	-0.074
low_pH_jason_reseq	-0.962	-1.052
NO_jason_reseq	-0.675	-0.108
B6_jason_reseq	-0.878	-0.548
MHCII_jason_reseq	-0.527	-0.268
Isoniazid02	-0.476	-0.426
Rifampicin4	-0.19	0.049
Ethambutol3	-0.139	-0.383
Meropenem3	-0.285	0.152
Vancomycin16	-0.491	-0.501
Rv2680_day32	0.919	0.053
H37Rv_KO_MarP	0.097	-0.121
hypoxia_3wks	0.195	-0.068
hypoxia_6wks	-0.09	0.267
glycerol	0.336	-0.601
cholesterol	2.757	0.37
AJ	0.736	0.977
Bibs02	0.254	0.424
Bibs02c	-0.12	-0.238
BL6	0.867	0.607
BL6a	0.451	0.026
BXD01	0.113	0.443
BXD010	-0.15	0.305
BXD011	0.31	0.372
BXD03	0.358	0.386
BXD04	0.133	0.409
BXD05	0.481	0.023
BXD06	0.367	0.535
BXD07	0.549	0.444
BXD08	-0.413	0.468
BXD09	0.478	0.321
CAST	0.355	0.469
CCcont	-0.517	-0.236
DS01	-0.034	0.224
DS02	0.555	0.224
DS04	-0.687	0.707
DS0c	-0.077	0.127
GP01	0.336	0.029
GP02	0.741	1.221
GP0c	-0.042	-0.023
NOD	0.952	0.926
NZO	0.572	0.433
PWK	0.399	1.698
H37Rv_KO_CtpC	0.487	0.021
H37Rv_KO_CtpD	0.476	0.851
H37Rv_KO_Rv1272	0.993	0.262
H37Rv_KO_SugABC	-0.662	0.711
H37Rv_KO_MbtN	0.325	0.026
Trans05	0.138	-0.081
macrophage_unactivated	0.335	0.347
IL1	-0.214	-0.492
Rapamycin	0.381	-0.488
Tcell	0.163	-0.14
GMCSF	0.689	0.127
IFNab	0.012	-0.166
IFNg	0.361	0.556
IFNg_GMCSF1	0.6	0.892
Rv1432_day32	0.321	0.262
Rv1565c_day32	0.145	0.889
secA2_input	-0.352	-0.728
delta_Rv3594	-0.531	-0.486
delta_Rv3717	-0.122	-0.79
delta_Rv3811	-0.22	-0.431
delta_Rv0954	-0.771	0.481
PonA1	0.067	0.369
EccD1_KO	-0.059	-0.332
EspI_KO	0.362	-0.599
PE35_KO	-0.321	-0.551
PPE68_KO	-1.005	-0.787
glycerol2	-0.21	0.067
lignocerate	-0.242	-0.03
oleate	0.102	0.492
phosphatidylcholine	-0.22	0.242
acetate	-0.342	-0.258
glucAc	-0.079	-0.762
Rv0950ko	0.7	-0.25
Rv1096ko	-0.802	-0.835
Rv3684ko	-0.691	-0.698
delta_otsA_trehalose	2.548	0.483