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 Rv2804c/-:

update plot	correlation	link to info on gene
Rv3607c/folB	(cc=0.5178)	info on Rv3607c/folB
Rv1646/PE17	(cc=0.5149)	info on Rv1646/PE17
Rv3026c/-	(cc=0.4881)	info on Rv3026c/-
Rv1163/narJ	(cc=0.4738)	info on Rv1163/narJ
Rv0985c/mscL	(cc=0.47)	info on Rv0985c/mscL
Rv0613c/-	(cc=0.4674)	info on Rv0613c/-
Rv2669/-	(cc=0.4642)	info on Rv2669/-
Rv2974c/-	(cc=0.4551)	info on Rv2974c/-
Rv3297/nei	(cc=0.4534)	info on Rv3297/nei
Rv0359/-	(cc=0.438)	info on Rv0359/-

Correlation of Rv2804c/- with Rv1646/PE17

Normalized LFCs for Rv2804c/-:
(description and provenance of datasets)

	Rv2804c/-	Rv1646/PE17
Fe_supp_jason_reseq	-0.661	0.358
low_pH_jason_reseq	0.211	-0.348
NO_jason_reseq	-0.087	0.181
B6_jason_reseq	-0.134	0.787
MHCII_jason_reseq	0.891	0.025
Isoniazid02	0.422	0.661
Rifampicin4	1.27	0.439
Ethambutol3	0.158	0.48
Meropenem3	0.247	-0.279
Vancomycin16	0.345	-0.167
Rv2680_day32	0.806	0.621
H37Rv_KO_MarP	0.435	-0.195
hypoxia_3wks	0.064	0.267
hypoxia_6wks	-0.113	-0.654
glycerol	0.521	0.329
cholesterol	0.516	0.325
AJ	0.916	0.948
Bibs02	0.903	0.13
Bibs02c	0.196	0.606
BL6	0.421	-0.783
BL6a	0.309	0.445
BXD01	-0.454	0.031
BXD010	0.11	-0.225
BXD011	0.404	-0.667
BXD03	-0.486	-0.788
BXD04	0.12	0.394
BXD05	0.016	-0.054
BXD06	-0.374	-0.508
BXD07	0.048	-0.498
BXD08	0.553	0.082
BXD09	-0.126	-0.457
CAST	0.958	1.018
CCcont	-0.504	-0.333
DS01	0.423	0.631
DS02	0.561	0.597
DS04	1.235	0.396
DS0c	1.119	1.196
GP01	-0.366	0.043
GP02	1.241	0.312
GP0c	0.064	0.025
NOD	0.566	0.765
NZO	0.207	0.525
PWK	0.732	0.479
H37Rv_KO_CtpC	1.116	0.071
H37Rv_KO_CtpD	0.039	-0.623
H37Rv_KO_Rv1272	-1.693	-0.306
H37Rv_KO_SugABC	0.353	-0.135
H37Rv_KO_MbtN	-0.847	0.468
Trans05	-0.386	-0.072
macrophage_unactivated	-0.208	-0.729
IL1	-0.658	-1.103
Rapamycin	-0.7	-1.264
Tcell	-0.622	-0.026
GMCSF	-0.38	-0.855
IFNab	-0.405	-1.403
IFNg	-0.77	-1.213
IFNg_GMCSF1	0.016	-0.698
Rv1432_day32	-0.631	-0.339
Rv1565c_day32	-0.52	-0.488
secA2_input	0.307	-0.067
delta_Rv3594	-0.216	0.219
delta_Rv3717	0.301	-0.447
delta_Rv3811	-0.082	0.089
delta_Rv0954	0.886	-0.167
PonA1	0.293	0.194
EccD1_KO	0.237	0.49
EspI_KO	0.784	0.351
PE35_KO	0.254	0.397
PPE68_KO	-0.134	0.873
glycerol2	0.496	0.573
lignocerate	0.566	0.32
oleate	0.254	0.763
phosphatidylcholine	0.515	0.882
acetate	0.414	-0.253
glucAc	-0.205	-0.363
Rv0950ko	-0.552	0.606
Rv1096ko	-0.688	-0.817
Rv3684ko	0.151	-0.321
delta_otsA_trehalose	-0.576	-1.123