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 Rv2090/-

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

	Rv1904/-	Rv2090/-
Fe_supp_jason_reseq	-0.229	-1.372
low_pH_jason_reseq	-0.962	-1.134
NO_jason_reseq	-0.675	0.236
B6_jason_reseq	-0.878	-0.867
MHCII_jason_reseq	-0.527	-0.422
Isoniazid02	-0.476	0.579
Rifampicin4	-0.19	-0.022
Ethambutol3	-0.139	-0.204
Meropenem3	-0.285	0.25
Vancomycin16	-0.491	-0.135
Rv2680_day32	0.919	1.052
H37Rv_KO_MarP	0.097	-0.131
hypoxia_3wks	0.195	0.195
hypoxia_6wks	-0.09	-0.495
glycerol	0.336	0.799
cholesterol	2.757	2.806
AJ	0.736	0.264
Bibs02	0.254	1.004
Bibs02c	-0.12	-0.18
BL6	0.867	-0.659
BL6a	0.451	-0.139
BXD01	0.113	0.086
BXD010	-0.15	-0.739
BXD011	0.31	-0.173
BXD03	0.358	-1.187
BXD04	0.133	0.141
BXD05	0.481	-0.58
BXD06	0.367	-0.252
BXD07	0.549	-0.053
BXD08	-0.413	-0.193
BXD09	0.478	-0.11
CAST	0.355	-0.217
CCcont	-0.517	-0.484
DS01	-0.034	-0.036
DS02	0.555	-0.033
DS04	-0.687	0.894
DS0c	-0.077	0.66
GP01	0.336	0.662
GP02	0.741	0.391
GP0c	-0.042	0.336
NOD	0.952	-0.086
NZO	0.572	0.967
PWK	0.399	-0.044
H37Rv_KO_CtpC	0.487	0.271
H37Rv_KO_CtpD	0.476	0.528
H37Rv_KO_Rv1272	0.993	0.69
H37Rv_KO_SugABC	-0.662	0.565
H37Rv_KO_MbtN	0.325	0.579
Trans05	0.138	0.639
macrophage_unactivated	0.335	0.628
IL1	-0.214	0.854
Rapamycin	0.381	1.39
Tcell	0.163	0.476
GMCSF	0.689	0.887
IFNab	0.012	1.599
IFNg	0.361	0.949
IFNg_GMCSF1	0.6	0.688
Rv1432_day32	0.321	-0.731
Rv1565c_day32	0.145	0.736
secA2_input	-0.352	0.016
delta_Rv3594	-0.531	0.142
delta_Rv3717	-0.122	0.169
delta_Rv3811	-0.22	0.065
delta_Rv0954	-0.771	-0.109
PonA1	0.067	-0.361
EccD1_KO	-0.059	0.365
EspI_KO	0.362	0.023
PE35_KO	-0.321	-0.648
PPE68_KO	-1.005	-0.243
glycerol2	-0.21	0.39
lignocerate	-0.242	-0.102
oleate	0.102	0.947
phosphatidylcholine	-0.22	0.644
acetate	-0.342	-0.308
glucAc	-0.079	-0.589
Rv0950ko	0.7	-0.766
Rv1096ko	-0.802	-0.051
Rv3684ko	-0.691	-0.174
delta_otsA_trehalose	2.548	0.575