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 Rv0613c/-

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

	Rv2804c/-	Rv0613c/-
Fe_supp_jason_reseq	-0.661	-1.264
low_pH_jason_reseq	0.211	-2.106
NO_jason_reseq	-0.087	-0.643
B6_jason_reseq	-0.134	0.221
MHCII_jason_reseq	0.891	0.773
Isoniazid02	0.422	-0.576
Rifampicin4	1.27	0.187
Ethambutol3	0.158	0.77
Meropenem3	0.247	-0.367
Vancomycin16	0.345	0.183
Rv2680_day32	0.806	1.226
H37Rv_KO_MarP	0.435	0.676
hypoxia_3wks	0.064	-0.538
hypoxia_6wks	-0.113	-0.505
glycerol	0.521	1.002
cholesterol	0.516	0.774
AJ	0.916	0.59
Bibs02	0.903	0.188
Bibs02c	0.196	0.45
BL6	0.421	-0.553
BL6a	0.309	-0.339
BXD01	-0.454	-0.472
BXD010	0.11	-0.253
BXD011	0.404	-0.238
BXD03	-0.486	-0.886
BXD04	0.12	0.215
BXD05	0.016	-1.429
BXD06	-0.374	-0.675
BXD07	0.048	-0.7
BXD08	0.553	-0.024
BXD09	-0.126	-1.03
CAST	0.958	0.496
CCcont	-0.504	-0.65
DS01	0.423	0.659
DS02	0.561	0.523
DS04	1.235	0.758
DS0c	1.119	0.24
GP01	-0.366	0.23
GP02	1.241	0.881
GP0c	0.064	-0.06
NOD	0.566	-0.041
NZO	0.207	0.549
PWK	0.732	0.678
H37Rv_KO_CtpC	1.116	-0.786
H37Rv_KO_CtpD	0.039	-0.119
H37Rv_KO_Rv1272	-1.693	-0.459
H37Rv_KO_SugABC	0.353	-1.183
H37Rv_KO_MbtN	-0.847	-1.082
Trans05	-0.386	-2.271
macrophage_unactivated	-0.208	-0.208
IL1	-0.658	-0.403
Rapamycin	-0.7	-0.144
Tcell	-0.622	-1.043
GMCSF	-0.38	-0.277
IFNab	-0.405	-0.967
IFNg	-0.77	-1.563
IFNg_GMCSF1	0.016	-0.239
Rv1432_day32	-0.631	-0.07
Rv1565c_day32	-0.52	0.349
secA2_input	0.307	0.03
delta_Rv3594	-0.216	0.364
delta_Rv3717	0.301	0.086
delta_Rv3811	-0.082	0.076
delta_Rv0954	0.886	-0.068
PonA1	0.293	-0.429
EccD1_KO	0.237	0.283
EspI_KO	0.784	0.317
PE35_KO	0.254	-0.158
PPE68_KO	-0.134	-0.262
glycerol2	0.496	0.419
lignocerate	0.566	0.799
oleate	0.254	0.618
phosphatidylcholine	0.515	0.322
acetate	0.414	-0.143
glucAc	-0.205	0.238
Rv0950ko	-0.552	-0.063
Rv1096ko	-0.688	1.164
Rv3684ko	0.151	0.069
delta_otsA_trehalose	-0.576	-1.054